test/testMakeBamFromRds.py

   1 '''
   2 Created on Jun 4, 2010
   3
   4 @author: sau
   5 '''
   6 import unittest
   7 from erange import MakeBamFromRds
   8
   9
  10 class TestMakeBamFromRds(unittest.TestCase):
  11
  12
  13     def setUp(self):
  14         pass
  15
  16
  17     def tearDown(self):
  18         pass
  19
  20
  21     #TODO: finish test
  22     def testFixSpliceSense(self):
  23         seq = "NNNGTAGNNN"
  24         startRight = 7
  25         stopLeft = 3
  26         sense, count = MakeBamFromRds.fixSpliceSense(seq, startRight, stopLeft)
  27         self.assertEquals("+", sense)
  28         self.assertEquals(0, count)
  29
  30
  31     #TODO: finish test
  32     def testGetMismatches(self):
  33         mismatchString = "3A10T"
  34         self.assertEqual(mismatchString, MakeBamFromRds.getMismatches("A3G, T10A"))
  35
  36         mismatchString = ""
  37         self.assertEqual(mismatchString, MakeBamFromRds.getMismatches(""))
  38
  39
  40 def suite():
  41     suite = unittest.TestSuite()
  42     suite.addTest(unittest.makeSuite(TestMakeBamFromRds))
  43
  44     return suite
  45
  46
  47 if __name__ == "__main__":
  48     #import sys;sys.argv = ['', 'Test.testName']
  49     unittest.main()